The success of deep networks in medical image segmentation relies heavily on massive labeled training data. However, acquiring dense annotations is a time-consuming process. Weakly-supervised methods normally employ less expensive forms of supervision, among which scribbles started to gain popularity lately thanks to its flexibility. However, due to lack of shape and boundary information, it is extremely challenging to train a deep network on scribbles that generalizes on unlabeled pixels. In this paper, we present a straightforward yet effective scribble supervised learning framework. Inspired by recent advances of transformer based segmentation, we create a pluggable spatial self-attention module which could be attached on top of any internal feature layers of arbitrary fully convolutional network (FCN) backbone. The module infuses global interaction while keeping the efficiency of convolutions. Descended from this module, we construct a similarity metric based on normalized and symmetrized attention. This attentive similarity leads to a novel regularization loss that imposes consistency between segmentation prediction and visual affinity. This attentive similarity loss optimizes the alignment of FCN encoders, attention mapping and model prediction. Ultimately, the proposed FCN+Attention architecture can be trained end-to-end guided by a combination of three learning objectives: partial segmentation loss, a customized masked conditional random fields and the proposed attentive similarity loss. Extensive experiments on public datasets (ACDC and CHAOS) showed that our framework not just out-performs existing state-of-the-art, but also delivers close performance to fully-supervised benchmark. Code will be available upon publication.
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Neural fields, a category of neural networks trained to represent high-frequency signals, have gained significant attention in recent years due to their impressive performance in modeling complex 3D data, such as signed distance (SDFs) or radiance fields (NeRFs), via a single multi-layer perceptron (MLP). However, despite the power and simplicity of representing signals with an MLP, these methods still face challenges when modeling large and complex temporal signals due to the limited capacity of MLPs. In this paper, we propose an effective approach to address this limitation by incorporating temporal residual layers into neural fields, dubbed ResFields. It is a novel class of networks specifically designed to effectively represent complex temporal signals. We conduct a comprehensive analysis of the properties of ResFields and propose a matrix factorization technique to reduce the number of trainable parameters and enhance generalization capabilities. Importantly, our formulation seamlessly integrates with existing MLP-based neural fields and consistently improves results across various challenging tasks: 2D video approximation, dynamic shape modeling via temporal SDFs, and dynamic NeRF reconstruction. Lastly, we demonstrate the practical utility of ResFields by showcasing its effectiveness in capturing dynamic 3D scenes from sparse RGBD cameras of a lightweight capture system.
Reconstructing natural speech from neural activity is vital for enabling direct communication via brain-computer interfaces. Previous efforts have explored the conversion of neural recordings into speech using complex deep neural network (DNN) models trained on extensive neural recording data, which is resource-intensive under regular clinical constraints. However, achieving satisfactory performance in reconstructing speech from limited-scale neural recordings has been challenging, mainly due to the complexity of speech representations and the neural data constraints. To overcome these challenges, we propose a novel transfer learning framework for neural-driven speech reconstruction, called Neural2Speech, which consists of two distinct training phases. First, a speech autoencoder is pre-trained on readily available speech corpora to decode speech waveforms from the encoded speech representations. Second, a lightweight adaptor is trained on the small-scale neural recordings to align the neural activity and the speech representation for decoding. Remarkably, our proposed Neural2Speech demonstrates the feasibility of neural-driven speech reconstruction even with only 20 minutes of intracranial data, which significantly outperforms existing baseline methods in terms of speech fidelity and intelligibility.
The emergence of large multimodal models has unlocked remarkable potential in AI, particularly in pathology. However, the lack of specialized, high-quality benchmark impeded their development and precise evaluation. To address this, we introduce PathMMU, the largest and highest-quality expert-validated pathology benchmark for LMMs. It comprises 33,573 multimodal multi-choice questions and 21,599 images from various sources, and an explanation for the correct answer accompanies each question. The construction of PathMMU capitalizes on the robust capabilities of GPT-4V, utilizing approximately 30,000 gathered image-caption pairs to generate Q\&As. Significantly, to maximize PathMMU's authority, we invite six pathologists to scrutinize each question under strict standards in PathMMU's validation and test sets, while simultaneously setting an expert-level performance benchmark for PathMMU. We conduct extensive evaluations, including zero-shot assessments of 14 open-sourced and three closed-sourced LMMs and their robustness to image corruption. We also fine-tune representative LMMs to assess their adaptability to PathMMU. The empirical findings indicate that advanced LMMs struggle with the challenging PathMMU benchmark, with the top-performing LMM, GPT-4V, achieving only a 51.7\% zero-shot performance, significantly lower than the 71.4\% demonstrated by human pathologists. After fine-tuning, even open-sourced LMMs can surpass GPT-4V with a performance of over 60\%, but still fall short of the expertise shown by pathologists. We hope that the PathMMU will offer valuable insights and foster the development of more specialized, next-generation LLMs for pathology.
There is a recent trend to leverage the power of graph neural networks (GNNs) for brain-network based psychiatric diagnosis, which,in turn, also motivates an urgent need for psychiatrists to fully understand the decision behavior of the used GNNs. However, most of the existing GNN explainers are either post-hoc in which another interpretive model needs to be created to explain a well-trained GNN, or do not consider the causal relationship between the extracted explanation and the decision, such that the explanation itself contains spurious correlations and suffers from weak faithfulness. In this work, we propose a granger causality-inspired graph neural network (CI-GNN), a built-in interpretable model that is able to identify the most influential subgraph (i.e., functional connectivity within brain regions) that is causally related to the decision (e.g., major depressive disorder patients or healthy controls), without the training of an auxillary interpretive network. CI-GNN learns disentangled subgraph-level representations {\alpha} and \b{eta} that encode, respectively, the causal and noncausal aspects of original graph under a graph variational autoencoder framework, regularized by a conditional mutual information (CMI) constraint. We theoretically justify the validity of the CMI regulation in capturing the causal relationship. We also empirically evaluate the performance of CI-GNN against three baseline GNNs and four state-of-the-art GNN explainers on synthetic data and three large-scale brain disease datasets. We observe that CI-GNN achieves the best performance in a wide range of metrics and provides more reliable and concise explanations which have clinical evidence.The source code and implementation details of CI-GNN are freely available at GitHub repository (//github.com/ZKZ-Brain/CI-GNN/).
Document AI is a growing research field that focuses on the comprehension and extraction of information from scanned and digital documents to make everyday business operations more efficient. Numerous downstream tasks and datasets have been introduced to facilitate the training of AI models capable of parsing and extracting information from various document types such as receipts and scanned forms. Despite these advancements, both existing datasets and models fail to address critical challenges that arise in industrial contexts. Existing datasets primarily comprise short documents consisting of a single page, while existing models are constrained by a limited maximum length, often set at 512 tokens. Consequently, the practical application of these methods in financial services, where documents can span multiple pages, is severely impeded. To overcome these challenges, we introduce LongFin, a multimodal document AI model capable of encoding up to 4K tokens. We also propose the LongForms dataset, a comprehensive financial dataset that encapsulates several industrial challenges in financial documents. Through an extensive evaluation, we demonstrate the effectiveness of the LongFin model on the LongForms dataset, surpassing the performance of existing public models while maintaining comparable results on existing single-page benchmarks.
With the rise of deep convolutional neural networks, object detection has achieved prominent advances in past years. However, such prosperity could not camouflage the unsatisfactory situation of Small Object Detection (SOD), one of the notoriously challenging tasks in computer vision, owing to the poor visual appearance and noisy representation caused by the intrinsic structure of small targets. In addition, large-scale dataset for benchmarking small object detection methods remains a bottleneck. In this paper, we first conduct a thorough review of small object detection. Then, to catalyze the development of SOD, we construct two large-scale Small Object Detection dAtasets (SODA), SODA-D and SODA-A, which focus on the Driving and Aerial scenarios respectively. SODA-D includes 24704 high-quality traffic images and 277596 instances of 9 categories. For SODA-A, we harvest 2510 high-resolution aerial images and annotate 800203 instances over 9 classes. The proposed datasets, as we know, are the first-ever attempt to large-scale benchmarks with a vast collection of exhaustively annotated instances tailored for multi-category SOD. Finally, we evaluate the performance of mainstream methods on SODA. We expect the released benchmarks could facilitate the development of SOD and spawn more breakthroughs in this field. Datasets and codes will be available soon at: \url{//shaunyuan22.github.io/SODA}.
Normalization is known to help the optimization of deep neural networks. Curiously, different architectures require specialized normalization methods. In this paper, we study what normalization is effective for Graph Neural Networks (GNNs). First, we adapt and evaluate the existing methods from other domains to GNNs. Faster convergence is achieved with InstanceNorm compared to BatchNorm and LayerNorm. We provide an explanation by showing that InstanceNorm serves as a preconditioner for GNNs, but such preconditioning effect is weaker with BatchNorm due to the heavy batch noise in graph datasets. Second, we show that the shift operation in InstanceNorm results in an expressiveness degradation of GNNs for highly regular graphs. We address this issue by proposing GraphNorm with a learnable shift. Empirically, GNNs with GraphNorm converge faster compared to GNNs using other normalization. GraphNorm also improves the generalization of GNNs, achieving better performance on graph classification benchmarks.
Deep neural networks (DNNs) are successful in many computer vision tasks. However, the most accurate DNNs require millions of parameters and operations, making them energy, computation and memory intensive. This impedes the deployment of large DNNs in low-power devices with limited compute resources. Recent research improves DNN models by reducing the memory requirement, energy consumption, and number of operations without significantly decreasing the accuracy. This paper surveys the progress of low-power deep learning and computer vision, specifically in regards to inference, and discusses the methods for compacting and accelerating DNN models. The techniques can be divided into four major categories: (1) parameter quantization and pruning, (2) compressed convolutional filters and matrix factorization, (3) network architecture search, and (4) knowledge distillation. We analyze the accuracy, advantages, disadvantages, and potential solutions to the problems with the techniques in each category. We also discuss new evaluation metrics as a guideline for future research.
Applying artificial intelligence techniques in medical imaging is one of the most promising areas in medicine. However, most of the recent success in this area highly relies on large amounts of carefully annotated data, whereas annotating medical images is a costly process. In this paper, we propose a novel method, called FocalMix, which, to the best of our knowledge, is the first to leverage recent advances in semi-supervised learning (SSL) for 3D medical image detection. We conducted extensive experiments on two widely used datasets for lung nodule detection, LUNA16 and NLST. Results show that our proposed SSL methods can achieve a substantial improvement of up to 17.3% over state-of-the-art supervised learning approaches with 400 unlabeled CT scans.
With the advent of deep neural networks, learning-based approaches for 3D reconstruction have gained popularity. However, unlike for images, in 3D there is no canonical representation which is both computationally and memory efficient yet allows for representing high-resolution geometry of arbitrary topology. Many of the state-of-the-art learning-based 3D reconstruction approaches can hence only represent very coarse 3D geometry or are limited to a restricted domain. In this paper, we propose occupancy networks, a new representation for learning-based 3D reconstruction methods. Occupancy networks implicitly represent the 3D surface as the continuous decision boundary of a deep neural network classifier. In contrast to existing approaches, our representation encodes a description of the 3D output at infinite resolution without excessive memory footprint. We validate that our representation can efficiently encode 3D structure and can be inferred from various kinds of input. Our experiments demonstrate competitive results, both qualitatively and quantitatively, for the challenging tasks of 3D reconstruction from single images, noisy point clouds and coarse discrete voxel grids. We believe that occupancy networks will become a useful tool in a wide variety of learning-based 3D tasks.
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